Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 21 of 50
Found at i:9680861 original size:47 final size:46
Alignment explanation
Indices: 9680778--9680912 Score: 143
Period size: 47 Copynumber: 3.0 Consensus size: 46
9680768 TCCAATCAAG
* ***
9680778 CTGGCATCCAAGATGTATAAGTCTAGTTACAATGGCACAAAAAGAGT
1 CTGGCATCCAAGATGTCTAAGTCTAGTTATGTTGGCAC-AAAAGAGT
* *
9680825 CTGGCATCCAAGATGTCTAAGTCCAGTTATGTTGGCACGAAAGAG-
1 CTGGCATCCAAGATGTCTAAGTCTAGTTATGTTGGCACAAAAGAGT
** * *
9680870 -TGTAAGCC--TATGTCTAAGTCTAGTTATGTTGGCACAAAAGAGT
1 CTGGCATCCAAGATGTCTAAGTCTAGTTATGTTGGCACAAAAGAGT
9680913 TTAAGCCCAA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 31 0.41
44 5 0.07
46 6 0.08
47 33 0.44
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (46 bp):
CTGGCATCCAAGATGTCTAAGTCTAGTTATGTTGGCACAAAAGAGT
Found at i:9680885 original size:42 final size:42
Alignment explanation
Indices: 9680837--9680919 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
9680827 GGCATCCAAG
*
9680837 ATGTCTAAGTCCAGTTATGTTGGCACGAAAGAGTGTAAGCCT
1 ATGTCTAAGTCCAGTTATGTTGGCACAAAAGAGTGTAAGCCT
* *
9680879 ATGTCTAAGTCTAGTTATGTTGGCACAAAAGAGTTTAAGCC
1 ATGTCTAAGTCCAGTTATGTTGGCACAAAAGAGTGTAAGCC
9680920 CAATCAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (42 bp):
ATGTCTAAGTCCAGTTATGTTGGCACAAAAGAGTGTAAGCCT
Found at i:9680998 original size:62 final size:62
Alignment explanation
Indices: 9680879--9681133 Score: 279
Period size: 61 Copynumber: 4.2 Consensus size: 62
9680869 GTGTAAGCCT
* * * * *
9680879 ATGTCTAAGTCTAGTTATGTTGGCAC-AAAAGAGTTTAAGCCCAATCAAGCT-GACATCCAAG
1 ATGTATAAGTCCAGTTACGTTAGCACAAAAAGAGTTTAAGCCCAAT-TAGCTAGACATCCAAG
* * *
9680940 ATGTATAAATCCAGTTACATTAGCACAAAAAGAGTTTAAGCCCAATTTACCTAG-CATCCAAG
1 ATGTATAAGTCCAGTTACGTTAGCACAAAAAGAGTTTAAGCCCAA-TTAGCTAGACATCCAAG
* * * * * * *
9681002 ATGTATAAGTCCAGTTACGTTGGCACAAATA-AGTTTAAGCCTAATCAAG-TTGCCATCTAAG
1 ATGTATAAGTCCAGTTACGTTAGCACAAAAAGAGTTTAAGCCCAAT-TAGCTAGACATCCAAG
* * *
9681063 ATGTATAAGTCTAGTTACGTTAGCATAAAAAGAGTTTAAGCCTAATTAGCTAG-CATCCAAG
1 ATGTATAAGTCCAGTTACGTTAGCACAAAAAGAGTTTAAGCCCAATTAGCTAGACATCCAAG
9681124 ATGTATAAGT
1 ATGTATAAGT
9681134 TGGTCCAAAA
Statistics
Matches: 163, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
60 3 0.02
61 86 0.53
62 72 0.44
63 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (62 bp):
ATGTATAAGTCCAGTTACGTTAGCACAAAAAGAGTTTAAGCCCAATTAGCTAGACATCCAAG
Found at i:9681103 original size:123 final size:122
Alignment explanation
Indices: 9680879--9681133 Score: 368
Period size: 123 Copynumber: 2.1 Consensus size: 122
9680869 GTGTAAGCCT
* * *
9680879 ATGTCTAAGTCTAGTTATGTTGGCACAAAAGAGTTTAAGCCCAATCAAGCTGACATCCAAGATGT
1 ATGTATAAGTCCAGTTACGTTGGCACAAAAGAGTTTAAGCCCAATCAAGCTGACATCCAAGATGT
9680944 ATAAATCCAGTTACATTAGCACAAAAAGAGTTTAAGCCCAATTTACCTAGCATCCAAG
66 ATAAATCCAGTTACATTAGCACAAAAAGAGTTTAAGCCCAA-TTACCTAGCATCCAAG
* * * *
9681002 ATGTATAAGTCCAGTTACGTTGGCACAAATA-AGTTTAAGCCTAATCAAGTTGCCATCTAAGATG
1 ATGTATAAGTCCAGTTACGTTGGCACAAA-AGAGTTTAAGCCCAATCAAGCTGACATCCAAGATG
* * * * * *
9681066 TATAAGTCTAGTTACGTTAGCATAAAAAGAGTTTAAGCCTAATTAGCTAGCATCCAAG
65 TATAAATCCAGTTACATTAGCACAAAAAGAGTTTAAGCCCAATTACCTAGCATCCAAG
9681124 ATGTATAAGT
1 ATGTATAAGT
9681134 TGGTCCAAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
122 25 0.21
123 92 0.78
124 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (122 bp):
ATGTATAAGTCCAGTTACGTTGGCACAAAAGAGTTTAAGCCCAATCAAGCTGACATCCAAGATGT
ATAAATCCAGTTACATTAGCACAAAAAGAGTTTAAGCCCAATTACCTAGCATCCAAG
Found at i:9681501 original size:3 final size:3
Alignment explanation
Indices: 9681493--9681540 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
9681483 GACAAATTTC
*
9681493 ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9681541 CATGTAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9683570 original size:9 final size:8
Alignment explanation
Indices: 9683549--9683594 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 8
9683539 AAAAACAAAA
9683549 AAAATAAT
1 AAAATAAT
*
9683557 GAAATAAT
1 AAAATAAT
9683565 GAAAATAAT
1 -AAAATAAT
9683574 AAATATAAT
1 AAA-ATAAT
9683583 AATAATAAT
1 AA-AATAAT
9683592 AAA
1 AAA
9683595 TGCAAGAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 11 0.33
9 21 0.64
10 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (8 bp):
AAAATAAT
Found at i:9687126 original size:15 final size:14
Alignment explanation
Indices: 9687106--9687156 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
9687096 TTCTTAAAAC
9687106 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
9687121 AACTTTAAAATTCAA
1 AACTTTAAAA-TCAA
*
9687136 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
9687150 AATCTTT
1 AA-CTTT
9687157 GATCTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 5 0.16
15 25 0.78
16 2 0.06
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:9688400 original size:47 final size:47
Alignment explanation
Indices: 9688309--9688407 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
9688299 NNNNNNNNNN
* * * * **
9688309 GAAAAGGGCGGCTCGTACCTAAAGGAGGGGGTTCGTGCTGAAAACCC
1 GAAAAGGGCAGCTCGTACCTAAAGGAGGAGGCTCATGCCAAAAACCC
* *
9688356 GAAAAGGGCAGCTCGTACCTAAGGGAGGAGGCTCATGCCAAAAACTC
1 GAAAAGGGCAGCTCGTACCTAAAGGAGGAGGCTCATGCCAAAAACCC
9688403 GAAAA
1 GAAAA
9688408 ATGGCGGCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.32, T:0.13
Consensus pattern (47 bp):
GAAAAGGGCAGCTCGTACCTAAAGGAGGAGGCTCATGCCAAAAACCC
Found at i:9689387 original size:62 final size:62
Alignment explanation
Indices: 9689227--9689518 Score: 482
Period size: 62 Copynumber: 4.7 Consensus size: 62
9689217 CATTAAAGAA
* *
9689227 TTAAATAGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTTCT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAA-TTTTGT
* *
9689290 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTTTAGAAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGT
* * *
9689352 TTAAATCGAACTTGTTGTGAGATAGGTCGAACCTAGATTAAGTCTAGGAATTTCAA--TT-T
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGT
*
9689411 TTAGATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGT
9689473 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTA
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTA
9689519 NNNNNNNNNN
Statistics
Matches: 212, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
59 53 0.25
60 2 0.01
61 2 0.01
62 102 0.48
63 53 0.25
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (62 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGT
Found at i:9689472 original size:121 final size:123
Alignment explanation
Indices: 9689227--9689518 Score: 489
Period size: 121 Copynumber: 2.4 Consensus size: 123
9689217 CATTAAAGAA
* *
9689227 TTAAATAGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTTCTTT
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAA--TTTCTTT
*
9689292 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTTTAGAAATTTTAATTTTGT
64 AAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTGT
* * *
9689352 TTAAATCGAACTTGTTGTGAGATAGGTCGAACCTAGATTAAGTCTAGGAATTTCAA-TT-TTTAG
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTCTTTAA
*
9689415 ATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTTAATTTTGT
66 ATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTGT
9689473 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTA
1 TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTA
9689519 NNNNNNNNNN
Statistics
Matches: 158, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
121 104 0.66
122 2 0.01
125 52 0.33
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (123 bp):
TTAAATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTCTTTAA
ATCGAACCTGTTGTGAGATAGGTCGAGCCTAGATTAAGTCTAGAAATTTTAATTTTGT
Found at i:9692955 original size:151 final size:151
Alignment explanation
Indices: 9692666--9692972 Score: 449
Period size: 151 Copynumber: 2.0 Consensus size: 151
9692656 AGGAGCTACC
* *
9692666 GTCGCCTCCCTCAACTGTAATCACATAAATTACTGTGTTACTCCATAAACATATGCAAAAATGTT
1 GTCGCCTCCCTCAACTGTAATCACAGAAATTACTGTGTTACTCCATAAACATATGCAAAAACGTT
* * * * *
9692731 GAACACAAAATGTTACAACCGATTTTACCGACAGCTCGTTATCAGTCTGCGTCTGAAGAGGATCA
66 GAACACAAAACGTTACAACCGATCTTACCGACAGCTCGTTATCAGTCTACGTCTGAAGAGAACCA
**
9692796 GTTGGTGGTTG-AGAAGTTGTT
131 GTCAGTGGTTGAAG-AGTTGTT
* *
9692817 GTCGCCTCCCTCAACTGTAATCACAGAAATTACTGTGTTACTCGATAAACATATGTAAAAACGTT
1 GTCGCCTCCCTCAACTGTAATCACAGAAATTACTGTGTTACTCCATAAACATATGCAAAAACGTT
*
9692882 GAACACAAAACGTTACAATCGATCTTACCGACAGCTCGTTATCAGTCTACGTCT-AAGGAGAACC
66 GAACACAAAACGTTACAACCGATCTTACCGACAGCTCGTTATCAGTCTACGTCTGAA-GAGAACC
9692946 TA-TCAGTGGTTGAAGAGTTGTT
130 -AGTCAGTGGTTGAAGAGTTGTT
*
9692968 ATCGC
1 GTCGC
9692973 ATGGTCCAAC
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
150 2 0.01
151 135 0.96
152 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (151 bp):
GTCGCCTCCCTCAACTGTAATCACAGAAATTACTGTGTTACTCCATAAACATATGCAAAAACGTT
GAACACAAAACGTTACAACCGATCTTACCGACAGCTCGTTATCAGTCTACGTCTGAAGAGAACCA
GTCAGTGGTTGAAGAGTTGTT
Found at i:9694523 original size:31 final size:31
Alignment explanation
Indices: 9694488--9694553 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
9694478 AAAAAGAAAT
*
9694488 AAATGTTGTTACACGCCATGCATATCAAGTA
1 AAATGTTGTAACACGCCATGCATATCAAGTA
*
9694519 AAATGTTGTAACACGCCATGCATATCAAGTT
1 AAATGTTGTAACACGCCATGCATATCAAGTA
9694550 AAAT
1 AAAT
9694554 ATCGTGACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (31 bp):
AAATGTTGTAACACGCCATGCATATCAAGTA
Found at i:9694564 original size:31 final size:31
Alignment explanation
Indices: 9694498--9694564 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
9694488 AAATGTTGTT
* *
9694498 ACACGCCATGCATATCAAGTAAAATGTTGTA
1 ACACGCCATGCATATCAAGTAAAATATCGTA
* *
9694529 ACACGCCATGCATATCAAGTTAAATATCGTG
1 ACACGCCATGCATATCAAGTAAAATATCGTA
9694560 ACACG
1 ACACG
9694565 TCAAAAACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.24
Consensus pattern (31 bp):
ACACGCCATGCATATCAAGTAAAATATCGTA
Found at i:9694644 original size:55 final size:55
Alignment explanation
Indices: 9694580--9694760 Score: 188
Period size: 55 Copynumber: 3.3 Consensus size: 55
9694570 AACCCATGTG
* ** * *
9694580 ACCAATTAACCCACAACACACCAGGAACAGCCGTGACATGCCAAAAACCTATAAA
1 ACCAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAAAAACCTAAAAA
* * * * *
9694635 TCCAGTTAACTCA-AGACATGCCAGGAATAGCCGTGACACGCTAATAATCC-AAAAA
1 ACCAGTTAACCCACA-ACATGCCAGGAACAGCCGTGACATGCTAA-AAACCTAAAAA
* * * *
9694690 ACCAGTTAACCCACAAAATGCTAGGAGCAGCCATGACATGCTAAAAA-CTCAAAAA
1 ACCAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAAAAACCT-AAAAA
9694745 ACCAGTTAACCCACAA
1 ACCAGTTAACCCACAA
9694761 TGCGCCATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
53 1 0.01
54 3 0.03
55 93 0.91
56 5 0.05
ACGTcount: A:0.44, C:0.29, G:0.13, T:0.14
Consensus pattern (55 bp):
ACCAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAAAAACCTAAAAA
Found at i:9695469 original size:103 final size:103
Alignment explanation
Indices: 9695204--9695706 Score: 537
Period size: 103 Copynumber: 4.9 Consensus size: 103
9695194 CACCATGGCG
* * * * * ** ** *
9695204 TGTCACACGTTCTGACCATGGCGTGCCCCACACT-TGAACCCTGTCGTGTCACACCCGTCCCATA
1 TGTCACAC-ATCTGACCATGACGTGTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCACA
* * * * * *
9695268 TATTCTCACCGTGCCGTCTCACACATTATCACCCTGCT-G
65 CATTATCACTGTGCCGTTTCACACATTATAACCCT-CTCT
* *** * * * *
9695307 TGTCACAGATTCCCTCCATGACGTGTCACACACTCAAAACCCTACCATGTCACAACCGTGTCAAA
1 TGTCACACA-TCTGACCATGACGTGTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCACA
*
9695372 CATTATCACTGTGCCGTTTCACACATTATAACCTTCTCT
65 CATTATCACTGTGCCGTTTCACACATTATAACCCTCTCT
* * *
9695411 TGTCACACATCTGACCATGACATGTCACACACTCTAAATCCTGCCGTGTCACACCCGTGTCACAC
1 TGTCACACATCTGACCATGACGTGTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCACAC
* *
9695476 ATTATCACTGTGCCGTTTTACACATTATAACCCTCTCC
66 ATTATCACTGTGCCGTTTCACACATTATAACCCTCTCT
* * * * * *
9695514 TGTCACACGTCTGACCATGGCGTGTCACACACTCTAAATCTTACCATGTCACACTCGTGTCACAC
1 TGTCACACATCTGACCATGACGTGTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCACAC
*
9695579 ATTATCACTGTGTCGTTTCACACATTATAACCCTCTCT
66 ATTATCACTGTGCCGTTTCACACATTATAACCCTCTCT
* * * * *
9695617 TGTCACACGTTTGACCATGACGTGTCACAAACTCTAAACCCTACTGTGTCACACCCTTGT--CAC
1 TGTCACACATCTGACCATGACGTGTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCACAC
* * * *
9695680 ATTCTCACCGTGTCGTCTCACACATTA
66 ATTATCACTGTGCCGTTTCACACATTA
9695707 GTACCCTGAC
Statistics
Matches: 337, Mismatches: 60, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
101 27 0.08
103 252 0.75
104 58 0.17
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (103 bp):
TGTCACACATCTGACCATGACGTGTCACACACTCTAAACCCTACCGTGTCACACCCGTGTCACAC
ATTATCACTGTGCCGTTTCACACATTATAACCCTCTCT
Found at i:9695717 original size:79 final size:80
Alignment explanation
Indices: 9695634--9695786 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 80
9695624 CGTTTGACCA
* * * * *
9695634 TGACGTGTCACAAACTCTAAACCCTACTGTGTCACACCCTTGTCAC-ATTCTCACCGTGTCGTCT
1 TGACGTGTCACAAACTCTAAACCCTACCGTGTCACACCCGTCTCACAATTCTCACCATGACGTCT
9695698 CACACATTAGTACCC
66 CACACATTAGTACCC
* * *
9695713 TGACGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTCTCACATATTCTCACCATGACGTG
1 TGACGTGTCACAAACTCTAAACCCTACCGTGTCACACCCGTCTCACA-ATTCTCACCATGACGTC
9695778 TCACACATT
65 TCACACATT
9695787 CCTACCATGC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 41 0.64
81 23 0.36
ACGTcount: A:0.24, C:0.36, G:0.13, T:0.27
Consensus pattern (80 bp):
TGACGTGTCACAAACTCTAAACCCTACCGTGTCACACCCGTCTCACAATTCTCACCATGACGTCT
CACACATTAGTACCC
Found at i:9695806 original size:79 final size:78
Alignment explanation
Indices: 9695630--9695807 Score: 185
Period size: 79 Copynumber: 2.2 Consensus size: 78
9695620 CACACGTTTG
* * * * * * *
9695630 ACCATGACGTGTCACAAACTCTAAACCCTACTGTGTCACACCCTTGTCACATTCTCACCGTGTCG
1 ACCATGACGTAT-ACACACTCTAAACCCTACCGTGTCACACCCGTCTCACATTCTCACCATGACG
*
9695695 TCTCACACATTAGT
65 TCTCACACATTACT
* * *
9695709 ACCCTGACGTGTCACACACTCTAAACCCTGCCGTGTCACACCCGTCTCACATATTCTCACCATGA
1 ACCATGACGTAT-ACACACTCTAAACCCTACCGTGTCACACCCGTCTCAC--ATTCTCACCATGA
* *
9695774 CGTGTCACACATTCCT
63 CGTCTCACACATTACT
*
9695790 ACCATGCCGTATCACACA
1 ACCATGACGTAT-ACACA
9695808 TTCCCACCAT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 44 0.53
81 39 0.47
ACGTcount: A:0.25, C:0.37, G:0.12, T:0.25
Consensus pattern (78 bp):
ACCATGACGTATACACACTCTAAACCCTACCGTGTCACACCCGTCTCACATTCTCACCATGACGT
CTCACACATTACT
Found at i:9695822 original size:23 final size:23
Alignment explanation
Indices: 9695750--9695828 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
9695740 CGTGTCACAC
* * *
9695750 CCGTCTCACATATTCTCACCATG
1 CCGTATCACACATTCCCACCATG
* * *
9695773 ACGTGTCACACATTCCTACCATG
1 CCGTATCACACATTCCCACCATG
*
9695796 CCGTATCACACATTCCCACCATT
1 CCGTATCACACATTCCCACCATG
*
9695819 CCGTTTCACA
1 CCGTATCACA
9695829 AACTCTAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.24, C:0.39, G:0.09, T:0.28
Consensus pattern (23 bp):
CCGTATCACACATTCCCACCATG
Found at i:9708753 original size:34 final size:34
Alignment explanation
Indices: 9708715--9708781 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
9708705 TCCGCGCCAA
* * *
9708715 ATATAAAGATGTTGAATATTG-TTCAATAAAAATC
1 ATATAAAAATGATAAATATTGCTT-AATAAAAATC
*
9708749 ATATAAAAATGATAAATGTTGCTTAATAAAAAT
1 ATATAAAAATGATAAATATTGCTTAATAAAAAT
9708782 AATTCAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.34
Consensus pattern (34 bp):
ATATAAAAATGATAAATATTGCTTAATAAAAATC
Found at i:9719156 original size:42 final size:42
Alignment explanation
Indices: 9719038--9719162 Score: 178
Period size: 42 Copynumber: 3.0 Consensus size: 42
9719028 CATCTCATAT
* * *
9719038 GCAACAACTTATGCGCACTCTCACTCGCACATAGCCGGGTCA
1 GCAACGACTTATGTGCACTCTCACTCGCACATAGTCGGGTCA
* * *
9719080 GCAACGGCTTATGTGCACTCCCACTCACACATAGTCGGGTCA
1 GCAACGACTTATGTGCACTCTCACTCGCACATAGTCGGGTCA
* *
9719122 GCAACGACTTATGTGCACTCTTACTCGCACATAGTTGGGTC
1 GCAACGACTTATGTGCACTCTCACTCGCACATAGTCGGGTC
9719163 CACATCAACA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (42 bp):
GCAACGACTTATGTGCACTCTCACTCGCACATAGTCGGGTCA
Found at i:9720395 original size:138 final size:138
Alignment explanation
Indices: 9720226--9720501 Score: 509
Period size: 138 Copynumber: 2.0 Consensus size: 138
9720216 TTTCACCATC
9720226 CATTTATGCCTTAGGCCTACTTAGGCCATAATATTGTTTAAAAATCTTACTTTTATGGGCTTACT
1 CATTTATGCCTTAGGCCTACTTAGGCCATAATATTGTTTAAAAATCTTACTTTTATGGGCTTACT
*
9720291 AAGAAAATGACGAAATTACCTCTAATCAGGGATATCGCGTATACTTCCCTTTACGAATCTATAAA
66 AAGAAAAGGACGAAATTACCTCTAATCAGGGATATCGCGTATACTTCCCTTTACGAATCTATAAA
9720356 GGTCAAGG
131 GGTCAAGG
*
9720364 NCATTTATGCC-TAGGCCTACTTAGGCCATAATATTGTTTAAAAATCTTACTTTTATTGGCTTAC
1 -CATTTATGCCTTAGGCCTACTTAGGCCATAATATTGTTTAAAAATCTTACTTTTATGGGCTTAC
*
9720428 TAAGGAAAGGACGAAATTACCTCTAATCAGGGATATCGCGTATACTTCCCTTTACGAATCTATAA
65 TAAGAAAAGGACGAAATTACCTCTAATCAGGGATATCGCGTATACTTCCCTTTACGAATCTATAA
9720493 AGGTCAAGG
130 AGGTCAAGG
9720502 TCTCATAATA
Statistics
Matches: 134, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
138 124 0.93
139 10 0.07
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (138 bp):
CATTTATGCCTTAGGCCTACTTAGGCCATAATATTGTTTAAAAATCTTACTTTTATGGGCTTACT
AAGAAAAGGACGAAATTACCTCTAATCAGGGATATCGCGTATACTTCCCTTTACGAATCTATAAA
GGTCAAGG
Found at i:9721217 original size:44 final size:45
Alignment explanation
Indices: 9721169--9721288 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 45
9721159 CATATATATA
* *
9721169 ATCATCATCCGGAGTAATCTCTCAACGGATGATAGCAT-ATCATC
1 ATCATCATCCGGAGTAATCTCTCAACGGATGATAACATAAACATC
* * * *
9721213 ATCATCATCCAGAGTAATCTCTCAATGGATGGTAACATAAACATT
1 ATCATCATCCGGAGTAATCTCTCAACGGATGATAACATAAACATC
* *
9721258 ATCATCATCCGGAGTAATCACTTAACGGATG
1 ATCATCATCCGGAGTAATCTCTCAACGGATG
9721289 GAAACACAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 34 0.52
45 31 0.48
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
ATCATCATCCGGAGTAATCTCTCAACGGATGATAACATAAACATC
Found at i:9721288 original size:45 final size:44
Alignment explanation
Indices: 9721142--9721294 Score: 162
Period size: 45 Copynumber: 3.4 Consensus size: 44
9721132 TCTAGAGTAG
* * * *
9721142 TCTCAACAGATGGAAATCATATATATAATCATCATCCGGAGTAATC
1 TCTCAACGGATGGTAA-CATA-ACATCATCATCATCCGGAGTAATC
* * * *
9721188 TCTCAACGGATGATAGCATATCATCATCATCATCCAGAGTAATC
1 TCTCAACGGATGGTAACATAACATCATCATCATCCGGAGTAATC
* *
9721232 TCTCAATGGATGGTAACATAAACATTATCATCATCCGGAGTAATC
1 TCTCAACGGATGGTAACAT-AACATCATCATCATCCGGAGTAATC
* * *
9721277 ACTTAACGGATGGAAACA
1 TCTCAACGGATGGTAACA
9721295 CAACTCTACA
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
44 36 0.41
45 40 0.45
46 12 0.14
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (44 bp):
TCTCAACGGATGGTAACATAACATCATCATCATCCGGAGTAATC
Found at i:9723488 original size:21 final size:21
Alignment explanation
Indices: 9723435--9723481 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
9723425 CCAAGTGGAA
9723435 ATCTATCGATAGTCTCTGTAG
1 ATCTATCGATAGTCTCTGTAG
*
9723456 ATCTATCAATAGTCTCTGTAG
1 ATCTATCGATAGTCTCTGTAG
9723477 ATCTA
1 ATCTA
9723482 CTGATAGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (21 bp):
ATCTATCGATAGTCTCTGTAG
Found at i:9728420 original size:4 final size:4
Alignment explanation
Indices: 9728403--9728436 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
9728393 AGAGAAAACA
*
9728403 GAAG GAAA GAAG GAAG GAAG GAAG GAAG GAAG GA
1 GAAG GAAG GAAG GAAG GAAG GAAG GAAG GAAG GA
9728437 CACCACAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (4 bp):
GAAG
Found at i:9733116 original size:6 final size:7
Alignment explanation
Indices: 9733099--9733123 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9733089 CATTTGGAAT
9733099 TTTTTTA
1 TTTTTTA
9733106 TTTTTTA
1 TTTTTTA
9733113 TTTTTTA
1 TTTTTTA
9733120 TTTT
1 TTTT
9733124 CCGATGATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:9738459 original size:3 final size:3
Alignment explanation
Indices: 9738451--9738485 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9738441 AGAACTGATT
9738451 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
9738486 TTTTGTTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:9740920 original size:23 final size:23
Alignment explanation
Indices: 9740889--9740933 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9740879 GTTTGTTGCA
*
9740889 AAAGGTTTTACTT-ATTTTCTTAG
1 AAAGGTTTT-CTTCATTTGCTTAG
*
9740912 AAAGTTTTTCTTCATTTGCTTA
1 AAAGGTTTTCTTCATTTGCTTA
9740934 TAGATCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.53
Consensus pattern (23 bp):
AAAGGTTTTCTTCATTTGCTTAG
Found at i:9753790 original size:2 final size:2
Alignment explanation
Indices: 9753783--9753811 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9753773 CACTGTACTT
9753783 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9753812 TATATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9754007 original size:2 final size:2
Alignment explanation
Indices: 9754000--9754026 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9753990 TAAANTTCCT
9754000 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
9754027 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9754032 original size:2 final size:2
Alignment explanation
Indices: 9754027--9754071 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
9754017 CTCTCTCTCT
*
9754027 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9754069 TA T
1 TA T
9754072 GGTCATGGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9754341 original size:35 final size:35
Alignment explanation
Indices: 9754290--9754358 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
9754280 TTTTTGTCTC
*
9754290 CTTTTAAATATGATACTAATAAAAGAATGCTTATA
1 CTTTTAAATATAATACTAATAAAAGAATGCTTATA
9754325 CTTTTAAATATAATACTAATAAAAGAATGCTTAT
1 CTTTTAAATATAATACTAATAAAAGAATGCTTAT
9754359 GTTTCAACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (35 bp):
CTTTTAAATATAATACTAATAAAAGAATGCTTATA
Found at i:9755502 original size:20 final size:22
Alignment explanation
Indices: 9755474--9755519 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
9755464 TATTTCTATC
*
9755474 TAAACTTATAATAC-T-AAATA
1 TAAAATTATAATACATAAAATA
9755494 TAAAATTATAATACATAAAATA
1 TAAAATTATAATACATAAAATA
9755516 TAAA
1 TAAA
9755520 TAGTTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 1 0.04
22 9 0.39
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATTATAATACATAAAATA
Found at i:9756748 original size:2 final size:2
Alignment explanation
Indices: 9756741--9756777 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9756731 TATGCGTAAC
9756741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9756778 TGTTGNTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9757992 original size:99 final size:99
Alignment explanation
Indices: 9757801--9758078 Score: 409
Period size: 99 Copynumber: 2.8 Consensus size: 99
9757791 CCATTTTTGT
* *
9757801 GGAGGAGGAGGGGATGCTGAAGTACCCCGGCTAGGCCCAGATGGAGGAAT---GACGCCTTTAGG
1 GGAGGAGGAGGGGATGCTGATGTACGCCGGCTAGGCCCAGATGGAGGAATGGGGACGCCTTTAGG
** * *
9757863 AAATGTTCCAAAATTCAACAGCCCTGTTGGTGGA
66 AAACATCCCAAAATTCAACAGCCCTATTGGTGGA
* *
9757897 GGAGGAGGGGGGGATGCTGATGTACGCCGGCTAGGCCCTGATGGAGGAATGGGGACGCCTTTAGG
1 GGAGGAGGAGGGGATGCTGATGTACGCCGGCTAGGCCCAGATGGAGGAATGGGGACGCCTTTAGG
*
9757962 AAACATCCCAAAATTCAACAGCCGTATTGGTGGA
66 AAACATCCCAAAATTCAACAGCCCTATTGGTGGA
* * *
9757996 GGAGGAGGCGGGGATGCTGATGTACGCCGACTAGGCCCAGATGGAGGAATGGGGACACCTTTAGG
1 GGAGGAGGAGGGGATGCTGATGTACGCCGGCTAGGCCCAGATGGAGGAATGGGGACGCCTTTAGG
* *
9758061 AAACACCCCGAAATTCAA
66 AAACATCCCAAAATTCAA
9758079 TTGGCTGGCT
Statistics
Matches: 164, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
96 46 0.28
99 118 0.72
ACGTcount: A:0.27, C:0.20, G:0.36, T:0.17
Consensus pattern (99 bp):
GGAGGAGGAGGGGATGCTGATGTACGCCGGCTAGGCCCAGATGGAGGAATGGGGACGCCTTTAGG
AAACATCCCAAAATTCAACAGCCCTATTGGTGGA
Found at i:9759552 original size:25 final size:26
Alignment explanation
Indices: 9759493--9759554 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
9759483 TTTATATAAC
9759493 TATAA-AACAATATTTATAGATATATA
1 TATAATAAC-ATATTTATAGATATATA
* *
9759519 AATATTAACATATTATATAG-TA-ATA
1 TATAATAACATATT-TATAGATATATA
9759544 TATAATAACAT
1 TATAATAACAT
9759555 TAATAACTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 12 0.40
26 10 0.33
27 8 0.27
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (26 bp):
TATAATAACATATTTATAGATATATA
Found at i:9760005 original size:22 final size:21
Alignment explanation
Indices: 9759965--9760005 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9759955 ACACCAAACA
**
9759965 AAAAGTAAATATATTTATACT
1 AAAAGTAAATATAGATATACT
9759986 AAAAGTAAATAATAGATATA
1 AAAAGTAAAT-ATAGATATA
9760006 TAATTATGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAGTAAATATAGATATACT
Found at i:9773610 original size:30 final size:30
Alignment explanation
Indices: 9773571--9773642 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
9773561 GCTCAAATTG
* *
9773571 GGGTTAAATGTTTAATATTGT-TTCAA-TTAA
1 GGGTCAAATGTTTAA-ATTGTAAT-AATTTAA
*
9773601 GGGTCAAATGTTTCAATTGTAATAATTTAA
1 GGGTCAAATGTTTAAATTGTAATAATTTAA
9773631 -GGTCAAATGTTT
1 GGGTCAAATGTTT
9773643 TCAAGTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 19 0.51
30 18 0.49
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (30 bp):
GGGTCAAATGTTTAAATTGTAATAATTTAA
Found at i:9773619 original size:29 final size:28
Alignment explanation
Indices: 9773571--9773669 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 28
9773561 GCTCAAATTG
* *
9773571 GGGTTAAATGTTTAATATTGTTTCAATTAA
1 GGGTCAAATGTTTCA-ATTGTTT-AATTAA
*
9773601 GGGTCAAATGTTTCAATTGTAATAATTTAA
1 GGGTCAAATGTTTCAATTGT-TTAA-TTAA
*
9773631 -GGTCAAATGTTTTCAAGTTCTTATAATTAA
1 GGGTCAAATG-TTTCAA-TTGTT-TAATTAA
*
9773661 GGGTTAAAT
1 GGGTCAAAT
9773670 TGACAGGTGG
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
29 16 0.28
30 28 0.49
31 13 0.23
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.42
Consensus pattern (28 bp):
GGGTCAAATGTTTCAATTGTTTAATTAA
Found at i:9774633 original size:28 final size:28
Alignment explanation
Indices: 9774446--9774640 Score: 148
Period size: 28 Copynumber: 7.1 Consensus size: 28
9774436 GGCCATGTTA
* * *
9774446 AAAAATATAG-TGTTACACGTCATGTTT
1 AAAAATATAGTTGTTATACGTCATATTG
* * * * *
9774473 TAAAATTTAGTTGTTACACGTTATGTT-
1 AAAAATATAGTTGTTATACGTCATATTG
* **
9774500 AGAAATA-A-TTGTTATACACCATATTG
1 AAAAATATAGTTGTTATACGTCATATTG
* * *
9774526 -AAAATTTAGTTGTTATACGTTATGTTG
1 AAAAATATAGTTGTTATACGTCATATTG
* * * *
9774553 AAAAATGTAGTTGTTACATGTCATGTTG
1 AAAAATATAGTTGTTATACGTCATATTG
* * **
9774581 AAAAATGTAGTTGTTACACACCATATTG
1 AAAAATATAGTTGTTATACGTCATATTG
*
9774609 AAAAATATAATTGTTATACGTCATATTG
1 AAAAATATAGTTGTTATACGTCATATTG
9774637 AAAA
1 AAAA
9774641 TTGAGTCATT
Statistics
Matches: 133, Mismatches: 30, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
25 16 0.12
26 2 0.02
27 26 0.20
28 89 0.67
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (28 bp):
AAAAATATAGTTGTTATACGTCATATTG
Found at i:9774641 original size:83 final size:81
Alignment explanation
Indices: 9774446--9774681 Score: 228
Period size: 83 Copynumber: 2.9 Consensus size: 81
9774436 GGCCATGTTA
* * * * * * *
9774446 AAAAATAT-AGTGTTACACGTCATGTTTTAAAATTTAGTTGTTACACGTTATGTT-AGAAA-TAA
1 AAAAATATAATTGTTATACGTCAT-ATTGAAAA-TTAGTTGTTACATGTCATGTTGAAAAATTAA
*
9774508 TTGTTATACACCATATTG
64 TTGTTACACACCATATTG
* * * *
9774526 -AAAATTTAGTTGTTATACGTTATGTTGAAAAATGTAGTTGTTACATGTCATGTTGAAAAATGTA
1 AAAAATATAATTGTTATACGTCATATTG-AAAAT-TAGTTGTTACATGTCATGTTGAAAAAT-TA
*
9774590 GTTGTTACACACCATATTG
63 ATTGTTACACACCATATTG
** * *
9774609 AAAAATATAATTGTTATACGTCATATTGAAAATTGAGTCATTATATGGCATGTTGAAAAATTTAA
1 AAAAATATAATTGTTATACGTCATATTGAAAATT-AGTTGTTACATGTCATGTTGAAAAA-TTAA
9774674 TTGTTACA
64 TTGTTACA
9774682 TGCCATGATG
Statistics
Matches: 126, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
79 9 0.07
80 33 0.26
81 4 0.03
82 1 0.01
83 55 0.44
84 24 0.19
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (81 bp):
AAAAATATAATTGTTATACGTCATATTGAAAATTAGTTGTTACATGTCATGTTGAAAAATTAATT
GTTACACACCATATTG
Found at i:9774663 original size:111 final size:108
Alignment explanation
Indices: 9774439--9774696 Score: 275
Period size: 111 Copynumber: 2.4 Consensus size: 108
9774429 TTGTTAAGGC
* * ** * *** * *
9774439 CATGTTAAAAAATATAG-TGTTACACGTCATGTTTTAAAATTTAGTTGTTACACGTTATGTTAGA
1 CATGTTGAAAAATATAGTTGTTACATGTCATGTTGAAAAATGTAGTTGTTACACACCATATTAAA
* ** *
9774503 AATAATTGTTATACACCATATTGAAAATTTAGTTGTTATACGT
66 AATAATTGTTATACACCATATTGAAAATTGAGTCATTATACGG
* *
9774546 TATGTTGAAAAATGTAGTTGTTACATGTCATGTTGAAAAATGTAGTTGTTACACACCATATTGAA
1 CATGTTGAAAAATATAGTTGTTACATGTCATGTTGAAAAATGTAGTTGTTACACACCATATT--A
** *
9774611 AAATATAATTGTTATACGTCATATTGAAAATTGAGTCATTATATGG
64 AAA-ATAATTGTTATACACCATATTGAAAATTGAGTCATTATACGG
* * * *
9774657 CATGTTGAAAAATTTAATTGTTACATGCCATGATGAAAAA
1 CATGTTGAAAAATATAGTTGTTACATGTCATGTTGAAAAA
9774697 GTTATTACAT
Statistics
Matches: 123, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
107 14 0.11
108 36 0.29
110 3 0.02
111 70 0.57
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (108 bp):
CATGTTGAAAAATATAGTTGTTACATGTCATGTTGAAAAATGTAGTTGTTACACACCATATTAAA
AATAATTGTTATACACCATATTGAAAATTGAGTCATTATACGG
Found at i:9774688 original size:28 final size:28
Alignment explanation
Indices: 9774429--9774696 Score: 131
Period size: 28 Copynumber: 9.8 Consensus size: 28
9774419 GGAAAAAATA
* * *
9774429 TTGTTA-AGGCCATGTTAAAAAATATAG
1 TTGTTACATGCCATGTTGAAAAATGTAG
* * ** *
9774456 -TGTTACACGTCATGTTTTAAAATTTAG
1 TTGTTACATGCCATGTTGAAAAATGTAG
* **
9774483 TTGTTACACGTTATGTTAGAAATAAT-T-G
1 TTGTTACATGCCATGTT-GAAA-AATGTAG
* * *
9774511 TT-ATACA--CCATATTG-AAAATTTAG
1 TTGTTACATGCCATGTTGAAAAATGTAG
* * **
9774535 TTGTTATACGTTATGTTGAAAAATGTAG
1 TTGTTACATGCCATGTTGAAAAATGTAG
*
9774563 TTGTTACATGTCATGTTGAAAAATGTAG
1 TTGTTACATGCCATGTTGAAAAATGTAG
** * * *
9774591 TTGTTACACACCATATTGAAAAATATAA
1 TTGTTACATGCCATGTTGAAAAATGTAG
* * * * *
9774619 TTGTTATACGTCATATTGAAAATTG-AG
1 TTGTTACATGCCATGTTGAAAAATGTAG
** * * * *
9774646 TCATTATATGGCATGTTGAAAAATTTAA
1 TTGTTACATGCCATGTTGAAAAATGTAG
*
9774674 TTGTTACATGCCATGATGAAAAA
1 TTGTTACATGCCATGTTGAAAAA
9774697 GTTATTACAT
Statistics
Matches: 184, Mismatches: 46, Indels: 21
0.73 0.18 0.08
Matches are distributed among these distances:
22 3 0.02
23 3 0.02
24 4 0.02
25 7 0.04
26 5 0.03
27 44 0.24
28 112 0.61
29 3 0.02
30 3 0.02
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (28 bp):
TTGTTACATGCCATGTTGAAAAATGTAG
Found at i:9774694 original size:55 final size:56
Alignment explanation
Indices: 9774547--9774696 Score: 142
Period size: 55 Copynumber: 2.7 Consensus size: 56
9774537 GTTATACGTT
* * * **
9774547 ATGTTGAAAAATGTAGTTGTTACATGTCATGTTGAAAAATGTAGTTGTTACACACC
1 ATGTTGAAAAATATAATTGTTACATGTCATGATGAAAAATGTAGTCATTACACACC
* * * * * ***
9774603 ATATTGAAAAATATAATTGTTATACGTCAT-ATTGAAAATTG-AGTCATTATATGGC
1 ATGTTGAAAAATATAATTGTTACATGTCATGA-TGAAAAATGTAGTCATTACACACC
* *
9774658 ATGTTGAAAAATTTAATTGTTACATGCCATGATGAAAAA
1 ATGTTGAAAAATATAATTGTTACATGTCATGATGAAAAA
9774697 GTTATTACAT
Statistics
Matches: 73, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
55 39 0.53
56 34 0.47
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (56 bp):
ATGTTGAAAAATATAATTGTTACATGTCATGATGAAAAATGTAGTCATTACACACC
Found at i:9776202 original size:181 final size:181
Alignment explanation
Indices: 9776004--9776367 Score: 698
Period size: 181 Copynumber: 2.0 Consensus size: 181
9775994 TCATGATAAT
9776004 TCATTTCAACTAAATATAAAACGTAAAGCATATAAAAAAGATATACTAAAGATAATTTCCTCTTA
1 TCATTTCAACTAAATATAAAACGTAAAGCATATAAAAAAGATATACTAAAGATAATTTCCTCTTA
9776069 TATAATCAAGATTAATTAAAAAATGATACATTGATAAAATTTTAAGTAACAATGCATCATTACAA
66 TATAATCAAGATTAATTAAAAAATGATACATTGATAAAATTTTAAGTAACAATGCATCATTACAA
9776134 CTTATATTCGAGCATTATATAATGATTTATTAATTTTAAAA-ATTATCAAA
131 CTTATATTCGAGCATTATATAATGATTTATTAATTTTAAAATATTATCAAA
9776184 TNCATTTCAACTAAATATAAAACGTAAAGCATATAAAAAAGATATACTAAAGATAATTTCCTCTT
1 T-CATTTCAACTAAATATAAAACGTAAAGCATATAAAAAAGATATACTAAAGATAATTTCCTCTT
9776249 ATATAATCAAGATTAATTAAAAAATGATACATTGATAAAATTTTAAGTAACAATGCATCATTACA
65 ATATAATCAAGATTAATTAAAAAATGATACATTGATAAAATTTTAAGTAACAATGCATCATTACA
9776314 ACTTATATTCGAGCATTATATAATGATTTATTAATTTTAAAATATTA--AAA
130 ACTTATATTCGAGCATTATATAATGATTTATTAATTTTAAAATATTATCAAA
9776364 TCAT
1 TCAT
9776368 GAAAATAAAA
Statistics
Matches: 182, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
179 3 0.02
180 5 0.03
181 170 0.93
182 4 0.02
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (181 bp):
TCATTTCAACTAAATATAAAACGTAAAGCATATAAAAAAGATATACTAAAGATAATTTCCTCTTA
TATAATCAAGATTAATTAAAAAATGATACATTGATAAAATTTTAAGTAACAATGCATCATTACAA
CTTATATTCGAGCATTATATAATGATTTATTAATTTTAAAATATTATCAAA
Found at i:9776560 original size:20 final size:18
Alignment explanation
Indices: 9776535--9776578 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
9776525 AAAATTTTTT
*
9776535 TTAAAAAATAATAATATAAA
1 TTAAAAAATAA-AA-AAAAA
9776555 TTAAAAAATAAAAAAAAA
1 TTAAAAAATAAAAAAAAA
9776573 TTAAAA
1 TTAAAA
9776579 TTGAATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.43
19 2 0.09
20 11 0.48
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TTAAAAAATAAAAAAAAA
Found at i:9777142 original size:31 final size:31
Alignment explanation
Indices: 9777078--9777142 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
9777068 CTAATTTTAA
* * **
9777078 ATTTTGTTTTGTTATACTTGATGTTCTTGTT
1 ATTTTGTTTTGTTATAATTGATGTTATAATT
* *
9777109 ATTTTGTTTTGTTATAATTGTTTTTATAATT
1 ATTTTGTTTTGTTATAATTGATGTTATAATT
9777140 ATT
1 ATT
9777143 GATTTTAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.66
Consensus pattern (31 bp):
ATTTTGTTTTGTTATAATTGATGTTATAATT
Found at i:9777474 original size:16 final size:17
Alignment explanation
Indices: 9777446--9777481 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
9777436 GTTCCTGGTC
*
9777446 AATGGTGGGAAAATTAA
1 AATGGTGGGAAAAGTAA
9777463 AATGGT-GGAAAAGTAA
1 AATGGTGGGAAAAGTAA
9777479 AAT
1 AAT
9777482 AGTGAGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.28, T:0.22
Consensus pattern (17 bp):
AATGGTGGGAAAAGTAA
Found at i:9778290 original size:41 final size:42
Alignment explanation
Indices: 9778230--9778344 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 42
9778220 ATTAAAATAG
*
9778230 TAATAATTAATA-ATTTAAATATTAATATTTTA-ATATAATT
1 TAATTATTAATATATTTAAATATTAATATTTTATATATAATT
* *
9778270 TAATTATTAATATTTTTAAATATTAATATTTTATTTATAATT
1 TAATTATTAATATATTTAAATATTAATATTTTATATATAATT
* * *
9778312 TAA-TATTATTATGGTTAAAATATTAATAATTTT
1 TAATTATTAATAT-ATTTAAATATTAAT-ATTTT
9778345 TTTATTTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
40 11 0.17
41 27 0.42
42 22 0.34
43 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (42 bp):
TAATTATTAATATATTTAAATATTAATATTTTATATATAATT
Found at i:9778293 original size:16 final size:15
Alignment explanation
Indices: 9778235--9778302 Score: 74
Period size: 15 Copynumber: 4.8 Consensus size: 15
9778225 AATAGTAATA
*
9778235 ATTAATAATTTAAAT
1 ATTAATATTTTAAAT
9778250 ATTAATATTTT-AAT
1 ATTAATATTTTAAAT
*
9778264 A-T-A-A-TTTAATT
1 ATTAATATTTTAAAT
9778275 ATTAATATTTTTAAAT
1 ATTAATA-TTTTAAAT
9778291 ATTAATATTTTA
1 ATTAATATTTTA
9778303 TTTATAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 3 0.07
11 4 0.09
12 2 0.05
13 2 0.05
14 5 0.11
15 15 0.34
16 13 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTAATATTTTAAAT
Found at i:9778333 original size:42 final size:42
Alignment explanation
Indices: 9778230--9778349 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
9778220 ATTAAAATAG
* *
9778230 TAATAATTAATAAT-TT-AAATATTAATATTTTA-ATATAATT
1 TAATTATTAAT-ATGTTAAAATATTAATATTTTATTTATAATT
* *
9778270 TAATTATTAATATTTTTAAATATTAATATTTTATTTATAATT
1 TAATTATTAATATGTTAAAATATTAATATTTTATTTATAATT
*
9778312 TAA-TATTATTATGGTTAAAATATTAATAATTTT-TTTAT
1 TAATTATTAATAT-GTTAAAATATTAAT-ATTTTATTTAT
9778350 TTTTTATTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
39 2 0.03
40 12 0.17
41 24 0.34
42 27 0.39
43 5 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (42 bp):
TAATTATTAATATGTTAAAATATTAATATTTTATTTATAATT
Found at i:9778390 original size:16 final size:16
Alignment explanation
Indices: 9778365--9778395 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9778355 ATTTATACTC
9778365 ATTAAAAATTTAATAG
1 ATTAAAAATTTAATAG
*
9778381 ATTAATAATTTAATA
1 ATTAAAAATTTAATA
9778396 AATAAAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTAAAAATTTAATAG
Found at i:9778424 original size:8 final size:9
Alignment explanation
Indices: 9778404--9778459 Score: 57
Period size: 8 Copynumber: 6.7 Consensus size: 9
9778394 TAAATAAAAC
9778404 ATTAATATT
1 ATTAATATT
9778413 -TTAA-ATT
1 ATTAATATT
9778420 ATTAATATT
1 ATTAATATT
9778429 -TTAATATT
1 ATTAATATT
**
9778437 -TTAATCCT
1 ATTAATATT
9778445 ATTAATATT
1 ATTAATATT
*
9778454 AATAAT
1 ATTAAT
9778460 GTTTAAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 3 0.08
8 22 0.56
9 14 0.36
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTAATATT
Found at i:9778502 original size:16 final size:14
Alignment explanation
Indices: 9778469--9778502 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
9778459 TGTTTAAATT
9778469 ATATATAAAATATA
1 ATATATAAAATATA
9778483 ATATNATAAAATATTA
1 ATAT-ATAAAATA-TA
9778499 ATAT
1 ATAT
9778503 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 8 0.44
16 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATATAAAATATA
Found at i:9778508 original size:16 final size:16
Alignment explanation
Indices: 9778398--9778510 Score: 62
Period size: 16 Copynumber: 7.4 Consensus size: 16
9778388 ATTTAATAAA
*
9778398 TAAAACATTAATATTT
1 TAAAATATTAATATTT
*
9778414 TAAATTATTAATATTT
1 TAAAATATTAATATTT
* * * *
9778430 TAATATTTTAATCCTAT
1 TAAAATATTAAT-ATTT
9778447 T--AATATTAATAATGTT
1 TAAAATATTAAT-AT-TT
*
9778463 T--AA-ATT-ATA-TA
1 TAAAATATTAATATTT
**
9778474 TAAAATA-TAATATNA
1 TAAAATATTAATATTT
9778489 TAAAATATTAATATTT
1 TAAAATATTAATATTT
9778505 TAAAAT
1 TAAAAT
9778511 TTATAAATAA
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
11 2 0.03
13 4 0.05
14 6 0.08
15 19 0.26
16 39 0.53
17 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (16 bp):
TAAAATATTAATATTT
Found at i:9785168 original size:28 final size:27
Alignment explanation
Indices: 9785132--9785184 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
9785122 ATATCCTGGT
*
9785132 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
9785159 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
9785185 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:9785252 original size:20 final size:20
Alignment explanation
Indices: 9785229--9785274 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
9785219 CTTCTAAACC
9785229 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
9785249 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
9785269 TCAAAT
1 TCAAAT
9785275 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:9795890 original size:2 final size:2
Alignment explanation
Indices: 9795883--9795927 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
9795873 AACTTAGAGT
9795883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9795925 TA T
1 TA T
9795928 CTCTATAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9799835 original size:19 final size:19
Alignment explanation
Indices: 9799813--9799850 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9799803 CTGCCAAACC
*
9799813 CTCAAATTATACTCAAATA
1 CTCAAATCATACTCAAATA
*
9799832 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCAAATA
9799851 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCAAATA
Found at i:9806312 original size:18 final size:17
Alignment explanation
Indices: 9806287--9806327 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
9806277 AAAAAACCAT
*
9806287 AAAAAAACAACCAAAAG
1 AAAAAAACAACAAAAAG
*
9806304 AAAACAAACAACAAAAAT
1 AAAA-AAACAACAAAAAG
9806322 AAAAAA
1 AAAAAA
9806328 TAAAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAAAACAACAAAAAG
Found at i:9812783 original size:26 final size:27
Alignment explanation
Indices: 9812725--9812787 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
9812715 AGAGGAGAGA
*
9812725 AAGGGAGAAAGATTTGGCCGTCGGTCG
1 AAGGAAGAAAGATTTGGCCGTCGGTCG
*
9812752 GA-GAAGAAAGATTTGGCCGTCGGT-G
1 AAGGAAGAAAGATTTGGCCGTCGGTCG
9812777 AAGGAAGAAAG
1 AAGGAAGAAAG
9812788 GGAGCCGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 29 0.91
27 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.40, T:0.16
Consensus pattern (27 bp):
AAGGAAGAAAGATTTGGCCGTCGGTCG
Found at i:9813496 original size:19 final size:19
Alignment explanation
Indices: 9813453--9813498 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
9813443 AAAAACTAAT
*
9813453 GAAAAGAACAAGATAAAAG
1 GAAAAGAACAAGATAAAAA
*
9813472 GGAAAGAACAAGATAAAAA
1 GAAAAGAACAAGATAAAAA
9813491 GAAAAGAA
1 GAAAAGAA
9813499 AGAGAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.70, C:0.04, G:0.22, T:0.04
Consensus pattern (19 bp):
GAAAAGAACAAGATAAAAA
Found at i:9814408 original size:11 final size:11
Alignment explanation
Indices: 9814385--9814422 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9814375 GGAGAAACTT
9814385 AAAATGA-AAA
1 AAAATGATAAA
9814395 AAAATGATAAA
1 AAAATGATAAA
*
9814406 AAAATAATAATA
1 AAAATGATAA-A
9814418 AAAAT
1 AAAAT
9814423 AAACTTCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 7 0.28
11 12 0.48
12 6 0.24
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (11 bp):
AAAATGATAAA
Found at i:9818936 original size:16 final size:17
Alignment explanation
Indices: 9818908--9818949 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
9818898 AATTAATTAT
9818908 ATTAAAAATATATAAAA
1 ATTAAAAATATATAAAA
9818925 ATTAAAAA-ATAT-AAA
1 ATTAAAAATATATAAAA
*
9818940 AGTAAAAATA
1 ATTAAAAATA
9818950 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 10 0.43
16 5 0.22
17 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (17 bp):
ATTAAAAATATATAAAA
Found at i:9823776 original size:24 final size:24
Alignment explanation
Indices: 9823749--9823795 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9823739 ATTCATATTA
9823749 ATTTATTAAT-TAAAAATTAAAAAC
1 ATTTA-TAATGTAAAAATTAAAAAC
* *
9823773 ATTTATCATGTTAAAATTAAAAA
1 ATTTATAATGTAAAAATTAAAAA
9823796 GGAATTCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
ATTTATAATGTAAAAATTAAAAAC
Found at i:9826398 original size:22 final size:22
Alignment explanation
Indices: 9826370--9826418 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
9826360 GATTGACTAA
* *
9826370 TTGTCATTAGTTAAAATGTTAC
1 TTGTCATTAGTCAAAATGCTAC
9826392 TTGTCATTAGTCAAAATGCTAC
1 TTGTCATTAGTCAAAATGCTAC
9826414 TTGTC
1 TTGTC
9826419 GCTTTATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (22 bp):
TTGTCATTAGTCAAAATGCTAC
Found at i:9826554 original size:33 final size:33
Alignment explanation
Indices: 9826501--9826564 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
9826491 ACCAATTAAT
* * *
9826501 ATGTCACATCATTATTAATTATGACATATTAGC
1 ATGTCACATCATCATCAATTATAACATATTAGC
* *
9826534 ATGTCACGTCATCATCAATTATAACTTATTA
1 ATGTCACATCATCATCAATTATAACATATTA
9826565 ACATACCACG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (33 bp):
ATGTCACATCATCATCAATTATAACATATTAGC
Found at i:9831127 original size:2 final size:2
Alignment explanation
Indices: 9831120--9831210 Score: 164
Period size: 2 Copynumber: 45.5 Consensus size: 2
9831110 ACATTGGGCC
9831120 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
9831162 TA TA TA CN TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9831204 TA TA TA T
1 TA TA TA T
9831211 GTATCAAGTC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9845740 original size:7 final size:7
Alignment explanation
Indices: 9845728--9845758 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9845718 CCATCTCCTC
9845728 TCTTGAT
1 TCTTGAT
9845735 TCTTGAT
1 TCTTGAT
*
9845742 TCTTGTT
1 TCTTGAT
9845749 TCTTGAT
1 TCTTGAT
9845756 TCT
1 TCT
9845759 AGATAACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.10, C:0.16, G:0.13, T:0.61
Consensus pattern (7 bp):
TCTTGAT
Found at i:9851751 original size:16 final size:17
Alignment explanation
Indices: 9851712--9851753 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9851702 TACGAATTTA
*
9851712 ATATAAACATTATAATT
1 ATATAAAAATTATAATT
* *
9851729 TTTTAAAAATT-TAATT
1 ATATAAAAATTATAATT
9851745 ATATAAAAA
1 ATATAAAAA
9851754 ATAAATATAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAAAAATTATAATT
Found at i:9870755 original size:42 final size:42
Alignment explanation
Indices: 9870707--9870787 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
9870697 TTATTTTTTC
*
9870707 ATGTGGGATTACAAATAAACTAAAACTATTATTTTATTTCTA
1 ATGTGGGACTACAAATAAACTAAAACTATTATTTTATTTCTA
9870749 ATGTGGGACTACAAATAAACTAAAACTATTATTTTATTT
1 ATGTGGGACTACAAATAAACTAAAACTATTATTTTATTT
9870788 TATAATTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (42 bp):
ATGTGGGACTACAAATAAACTAAAACTATTATTTTATTTCTA
Found at i:9880246 original size:19 final size:19
Alignment explanation
Indices: 9880222--9880260 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9880212 ATCAATTAAG
*
9880222 GTTAATCAACTAATCAAGT
1 GTTAATCAAATAATCAAGT
*
9880241 GTTAATCAAATAATTAAGT
1 GTTAATCAAATAATCAAGT
9880260 G
1 G
9880261 ACCTTACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (19 bp):
GTTAATCAAATAATCAAGT
Found at i:9886966 original size:19 final size:19
Alignment explanation
Indices: 9886939--9886977 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9886929 ACCTTATTTT
9886939 TTATATTTAAATAAATTAA
1 TTATATTTAAATAAATTAA
* * *
9886958 TTATGTTTAATTGAATTAA
1 TTATATTTAAATAAATTAA
9886977 T
1 T
9886978 CGTGTATTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTATATTTAAATAAATTAA
Found at i:9896228 original size:109 final size:109
Alignment explanation
Indices: 9896015--9896225 Score: 343
Period size: 109 Copynumber: 1.9 Consensus size: 109
9896005 TAAAATGACT
* * *
9896015 AAATATGTTAATTTAGTTATAACTTTCACAATTTACAAATACACATTCTTTTGAAATTATTCAAC
1 AAATATGTTAATTTAATTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATCATTCAAC
* *
9896080 TCTTACCCACTTCACCTTTTATTTAAATTTAACTCAAATTAGCA
66 TCTAACCCAATTCACCTTTTATTTAAATTTAACTCAAATTAGCA
* *
9896124 AAATATGTTAATTTAATTACAATTTTTACAATTTACAAATACACATTCTTTTGAAATCATTCAAC
1 AAATATGTTAATTTAATTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATCATTCAAC
*
9896189 TCTAACCCAATTTACCTTTTATTTAAATTT-ACTCAAA
66 TCTAACCCAATTCACCTTTTATTTAAATTTAACTCAAA
9896226 ATTTCTTATA
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
108 7 0.07
109 87 0.93
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.42
Consensus pattern (109 bp):
AAATATGTTAATTTAATTACAACTTTCACAATTTACAAATACACATTCTTTTGAAATCATTCAAC
TCTAACCCAATTCACCTTTTATTTAAATTTAACTCAAATTAGCA
Found at i:9902298 original size:112 final size:114
Alignment explanation
Indices: 9902082--9902307 Score: 368
Period size: 112 Copynumber: 2.0 Consensus size: 114
9902072 CCATCGCATA
* * * *
9902082 AAAGACCATACTACACTTTAGACTTTAAATTTAAGGTGTAAACCAATTTAAGACTATGATTTATT
1 AAAGACCATACTAAACTTTAGACTTGAAATTTAAGGTGTAAACCAACTTAAGACTATGATTCATT
9902147 TACTAACAAATCAATAGTTATCAGAAATACAGATCCCATATAAGATGTT
66 TACTAACAAATCAATAGTTATCAGAAATACAGATCCCATATAAGATGTT
* *
9902196 AAAGA-CA-ACTAAACTTTAGACTTGAAATTTAAGTTGTAAACCAACTTAAGACTATGCTTCATT
1 AAAGACCATACTAAACTTTAGACTTGAAATTTAAGGTGTAAACCAACTTAAGACTATGATTCATT
9902259 TACTAACAAATCAATAGTTATCAGAAATACAGA-CACCATATAAGATGTT
66 TACTAACAAATCAATAGTTATCAGAAATACAGATC-CCATATAAGATGTT
9902308 GCTTTCATTT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
111 1 0.01
112 97 0.92
113 2 0.02
114 5 0.05
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (114 bp):
AAAGACCATACTAAACTTTAGACTTGAAATTTAAGGTGTAAACCAACTTAAGACTATGATTCATT
TACTAACAAATCAATAGTTATCAGAAATACAGATCCCATATAAGATGTT
Found at i:9906744 original size:17 final size:17
Alignment explanation
Indices: 9906676--9906747 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
9906666 AACTGAAGAG
*
9906676 AAGAATGAAAGAGAGAAA
1 AAGAAAGAAAGAGA-AAA
* * *
9906694 GAGAAAGGAAAAAAGAACA
1 AAGAAA-G-AAAGAGAAAA
*
9906713 AAGAAAGAAATAGAAAA
1 AAGAAAGAAAGAGAAAA
*
9906730 AAGAAAGAAGGAGAAAA
1 AAGAAAGAAAGAGAAAA
9906747 A
1 A
9906748 CAAAGAGACA
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 24 0.56
18 5 0.12
19 8 0.19
20 6 0.14
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (17 bp):
AAGAAAGAAAGAGAAAA
Found at i:9914695 original size:20 final size:20
Alignment explanation
Indices: 9914670--9914710 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9914660 ATTCATGCAT
*
9914670 TAATTTTCTACACATTTAAG
1 TAATTTTCTACACACTTAAG
* *
9914690 TAATTTTTTGCACACTTAAG
1 TAATTTTCTACACACTTAAG
9914710 T
1 T
9914711 CAAGGCATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (20 bp):
TAATTTTCTACACACTTAAG
Found at i:9933542 original size:20 final size:20
Alignment explanation
Indices: 9933517--9933562 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
9933507 GCCAGCATGG
9933517 GATTCATCATGAAATCATCT
1 GATTCATCATGAAATCATCT
*
9933537 GATTCATCATGAAATCATGT
1 GATTCATCATGAAATCATCT
9933557 GATTCA
1 GATTCA
9933563 ACCATGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
GATTCATCATGAAATCATCT
Found at i:9937371 original size:22 final size:23
Alignment explanation
Indices: 9937346--9937389 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
9937336 ATAAAGTATT
9937346 TACATATG-TATGTATATATACA
1 TACATATGATATGTATATATACA
9937368 TACATATGTATATGTATATATA
1 TACATATG-ATATGTATATATA
9937390 TACACACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (23 bp):
TACATATGATATGTATATATACA
Found at i:9937392 original size:22 final size:22
Alignment explanation
Indices: 9937346--9937393 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
9937336 ATAAAGTATT
*
9937346 TACATATGTATGTATATATACA
1 TACATATGTATATATATATACA
* *
9937368 TACATATGTATATGTATATATA
1 TACATATGTATATATATATACA
9937390 TACA
1 TACA
9937394 CACATACACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
TACATATGTATATATATATACA
Found at i:9949076 original size:35 final size:35
Alignment explanation
Indices: 9949030--9949101 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
9949020 TGATAGAGGA
9949030 CATTTTTGTTGAATAACCTGAAGAGTATGAAGAAC
1 CATTTTTGTTGAATAACCTGAAGAGTATGAAGAAC
*
9949065 CATTTTTGTTGAATAACCTGAAGGGTATGAAGAAC
1 CATTTTTGTTGAATAACCTGAAGAGTATGAAGAAC
9949100 CA
1 CA
9949102 GGGTTAGAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (35 bp):
CATTTTTGTTGAATAACCTGAAGAGTATGAAGAAC
Found at i:9949114 original size:35 final size:35
Alignment explanation
Indices: 9949040--9949115 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
9949030 CATTTTTGTT
** * *
9949040 GAATAACCTGAAGAGTATGAAGAACCATTTTTGTT
1 GAATAACCTGAAGAGTATGAAGAACCAGGTTAGTA
*
9949075 GAATAACCTGAAGGGTATGAAGAACCAGGGTTAG-A
1 GAATAACCTGAAGAGTATGAAGAACCA-GGTTAGTA
9949110 GAATAA
1 GAATAA
9949116 AGTCTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 32 0.91
36 3 0.09
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.24
Consensus pattern (35 bp):
GAATAACCTGAAGAGTATGAAGAACCAGGTTAGTA
Found at i:9952447 original size:25 final size:25
Alignment explanation
Indices: 9952418--9952473 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
9952408 TCGTAACTAT
**
9952418 GTATATCAACTTGTGGCCTAGCCAC
1 GTATATCAACCGGTGGCCTAGCCAC
*
9952443 GTATATCAACCGGTGGCCTCGCCAC
1 GTATATCAACCGGTGGCCTAGCCAC
9952468 GTATAT
1 GTATAT
9952474 ATCATAGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (25 bp):
GTATATCAACCGGTGGCCTAGCCAC
Found at i:9953937 original size:4 final size:4
Alignment explanation
Indices: 9953928--9953995 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
9953918 AAAGCCAATC
* * *
9953928 CTTT CTTT C-TT -TTT CTCTT C-TT CTTC CTTCT CATT CCTT CTTT C-TT
1 CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTT-T CTTT CTTT CTTT CTTT
9953974 CTTT CTTT CTTT -TTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTT
9953996 CTCGGGTGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
3 13 0.25
4 34 0.65
5 5 0.10
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (4 bp):
CTTT
Found at i:9953974 original size:7 final size:7
Alignment explanation
Indices: 9953928--9953997 Score: 61
Period size: 7 Copynumber: 9.3 Consensus size: 7
9953918 AAAGCCAATC
9953928 CTTTCTTT
1 CTTTC-TT
9953936 CTTT-TT
1 CTTTCTT
9953942 CTCTTCTT
1 CT-TTCTT
*
9953950 CTTCCTT
1 CTTTCTT
9953957 CTCATTCCTT
1 CT--TT-CTT
9953967 CTTTCTT
1 CTTTCTT
9953974 CTTTCTTT
1 CTTTC-TT
*
9953982 CTTTTTT
1 CTTTCTT
9953989 CTTTCTT
1 CTTTCTT
9953996 CT
1 CT
9953998 CGGGTGAAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
6 4 0.08
7 26 0.50
8 16 0.31
9 1 0.02
10 5 0.10
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (7 bp):
CTTTCTT
Found at i:9954896 original size:11 final size:11
Alignment explanation
Indices: 9954880--9954906 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9954870 TTTAATAAAA
9954880 TATTATTATTT
1 TATTATTATTT
9954891 TATTATTATTT
1 TATTATTATTT
9954902 TATTA
1 TATTA
9954907 CGTATGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTATTATTT
Found at i:9966477 original size:30 final size:31
Alignment explanation
Indices: 9966416--9966480 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
9966406 ATTATTAATA
9966416 ATAAGGGTTTATATGACTCAAAATAAAAAGT
1 ATAAGGGTTTATATGACTCAAAATAAAAAGT
* ** *
9966447 ATAAGGGTTTATTTGTTTTAAAAT-AAAAGT
1 ATAAGGGTTTATATGACTCAAAATAAAAAGT
9966477 ATAA
1 ATAA
9966481 ATGCTTGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.35
Consensus pattern (31 bp):
ATAAGGGTTTATATGACTCAAAATAAAAAGT
Found at i:9977455 original size:20 final size:20
Alignment explanation
Indices: 9977430--9977476 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
9977420 GTTAATTTAA
9977430 GTTATTTAGTTAAATTTCAT
1 GTTATTTAGTTAAATTTCAT
9977450 GTTATTTAGTTAAATTTCAT
1 GTTATTTAGTTAAATTTCAT
9977470 GTTATTT
1 GTTATTT
9977477 TGTTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (20 bp):
GTTATTTAGTTAAATTTCAT
Found at i:9978198 original size:27 final size:27
Alignment explanation
Indices: 9978160--9978211 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
9978150 AGCAACTATT
9978160 TTGGATTAATGGTTAATTTTCTTTGAC
1 TTGGATTAATGGTTAATTTTCTTTGAC
9978187 TTGGATTAATGGTTAATTTTCTTTG
1 TTGGATTAATGGTTAATTTTCTTTG
9978212 GATGAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.06, G:0.19, T:0.54
Consensus pattern (27 bp):
TTGGATTAATGGTTAATTTTCTTTGAC
Found at i:10000755 original size:50 final size:51
Alignment explanation
Indices: 10000691--10000807 Score: 123
Period size: 52 Copynumber: 2.3 Consensus size: 51
10000681 CCACTATCAA
* * *
10000691 GGATTCTTGCTTTTT-AC-CG-GGAAGCGATAACCTTTACACTATCCACAATG
1 GGATTCTTGTTTTTTCACGCGAGGAAGCGATAACCCTTACA--ATCCACAAAG
**
10000741 GGATTCTTGTTTTTTTCACGCGATTAAGCGATAACCCTTACAATCCACAAAG
1 GGATTCTTG-TTTTTTCACGCGAGGAAGCGATAACCCTTACAATCCACAAAG
* *
10000793 AGATTCTTTTTTTTT
1 GGATTCTTGTTTTTT
10000808 TTTACAAGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
50 9 0.16
51 11 0.20
52 18 0.32
53 2 0.04
54 16 0.29
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (51 bp):
GGATTCTTGTTTTTTCACGCGAGGAAGCGATAACCCTTACAATCCACAAAG
Found at i:10007614 original size:23 final size:23
Alignment explanation
Indices: 10007583--10007626 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10007573 TGTAAACATA
* *
10007583 AACATAACATAAATGGACTCGTC
1 AACAGAACATAAATCGACTCGTC
*
10007606 AACAGAACATAACTCGACTCG
1 AACAGAACATAAATCGACTCG
10007627 CTAGGTATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (23 bp):
AACAGAACATAAATCGACTCGTC
Found at i:10012008 original size:51 final size:51
Alignment explanation
Indices: 10011900--10012006 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
10011890 AATAGGTTGT
*
10011900 GTAAAATGTTTAAGAGCGCAAATTAAAAATGTTTTAATTTGTAATTTGTAA
1 GTAAAATGTTTAAGAGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
10011951 GTAAAATGTTT-AGCAGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
1 GTAAAATGTTTAAG-AGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
10012002 -TAAAA
1 GTAAAA
10012007 ATTTAATTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
50 7 0.13
51 47 0.87
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (51 bp):
GTAAAATGTTTAAGAGCACAAATTAAAAATGTTTTAATTTGTAATTTGTAA
Found at i:10012693 original size:58 final size:57
Alignment explanation
Indices: 10012603--10012711 Score: 164
Period size: 58 Copynumber: 1.9 Consensus size: 57
10012593 CAAAGTAGTT
*
10012603 TGCATATGATAGATTTGTTTTATACAATTTAATAAATGATATGCAATGCAAAATAATA
1 TGCATATGATAGATTTATTTTATACAATTTAATAAATGATATGC-ATGCAAAATAATA
* * * *
10012661 TGCATGTGATAGATTTATTTTATGCGATTTAATAAATGCTATGCATGCAAA
1 TGCATATGATAGATTTATTTTATACAATTTAATAAATGATATGCATGCAAA
10012712 GATGAGACCC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 7 0.15
58 39 0.85
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (57 bp):
TGCATATGATAGATTTATTTTATACAATTTAATAAATGATATGCATGCAAAATAATA
Found at i:10017007 original size:26 final size:25
Alignment explanation
Indices: 10016978--10017033 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
10016968 GTGAAAGACA
10016978 AGAAGGAAGAAGAAGAAGAAGCTGCT
1 AGAA-GAAGAAGAAGAAGAAGCTGCT
* * *
10017004 AGAA-AA-TAGGAGAAGAAGCTTCT
1 AGAAGAAGAAGAAGAAGAAGCTGCT
10017027 AGAAGAA
1 AGAAGAA
10017034 AGAGATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 18 0.69
24 4 0.15
26 4 0.15
ACGTcount: A:0.52, C:0.07, G:0.30, T:0.11
Consensus pattern (25 bp):
AGAAGAAGAAGAAGAAGAAGCTGCT
Found at i:10020048 original size:78 final size:77
Alignment explanation
Indices: 10019956--10020112 Score: 192
Period size: 78 Copynumber: 2.0 Consensus size: 77
10019946 TCCATAAATT
* *
10019956 ATCATCATGCTTAGCCCATAATGTATAAGACTAT-CTCAACACATACATCTCATGGCATACAT-T
1 ATCATCATGCTTAGCCCATAATGTACAAGA-TATGCTCAACACATACATCTCATGGAATACATGT
*
10020019 TCATAACCTCATAA
65 T-ACAACCTCATAA
* * * * *
10020033 ATCACTCATGCTTAGCTCATAGTGTACATGATATGCTTAACGCATACATCTCATGGAATACATGT
1 ATCA-TCATGCTTAGCCCATAATGTACAAGATATGCTCAACACATACATCTCATGGAATACATGT
*
10020098 TACAATCTCATAA
65 TACAACCTCATAA
10020111 AT
1 AT
10020113 TGAACTCATG
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 7 0.10
78 59 0.87
79 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (77 bp):
ATCATCATGCTTAGCCCATAATGTACAAGATATGCTCAACACATACATCTCATGGAATACATGTT
ACAACCTCATAA
Found at i:10021765 original size:21 final size:21
Alignment explanation
Indices: 10021723--10021762 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10021713 TTATATCCAT
10021723 ATGTATCAATACATTATGAAC
1 ATGTATCAATACATTATGAAC
*
10021744 ATGTATCGATACATT-TGAA
1 ATGTATCAATACATTATGAA
10021763 ACAGAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
ATGTATCAATACATTATGAAC
Found at i:10021920 original size:16 final size:16
Alignment explanation
Indices: 10021889--10021931 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
10021879 CATTTGAATT
**
10021889 CAATAAAAATATAAAA
1 CAATAAAAATCCAAAA
10021905 CAATAAAAATCCAAAA
1 CAATAAAAATCCAAAA
* *
10021921 GAATCAAAATC
1 CAATAAAAATC
10021932 TAAATTTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (16 bp):
CAATAAAAATCCAAAA
Found at i:10023698 original size:43 final size:43
Alignment explanation
Indices: 10023650--10023768 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 43
10023640 GTAATTATAT
* * **
10023650 TGACTCGGCTATATGCGAGTAGGGAGTGCGCATAGGCCGATGA
1 TGACTCGGCTATGTGCGAGTAGGGAGTGTGCATAACCCGATGA
*
10023693 TGACTCGGTTATGTGCGAGTAGGGAGTGTGCATAACCCGATGA
1 TGACTCGGCTATGTGCGAGTAGGGAGTGTGCATAACCCGATGA
* * * *
10023736 TGACCCAGCCATGTGCGAGTAAGGAGTGTGCAT
1 TGACTCGGCTATGTGCGAGTAGGGAGTGTGCAT
10023769 GAGCTGGTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.23
Consensus pattern (43 bp):
TGACTCGGCTATGTGCGAGTAGGGAGTGTGCATAACCCGATGA
Found at i:10023806 original size:23 final size:23
Alignment explanation
Indices: 10023776--10023828 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
10023766 CATGAGCTGG
*
10023776 TGATGATGAGACGGTGTGCATGA
1 TGATGATGAGACGGTGTACATGA
* **
10023799 TGATGATGGGGTGGTGTACATGA
1 TGATGATGAGACGGTGTACATGA
10023822 TGATGAT
1 TGATGAT
10023829 AAGTATATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.06, G:0.40, T:0.30
Consensus pattern (23 bp):
TGATGATGAGACGGTGTACATGA
Found at i:10037008 original size:21 final size:19
Alignment explanation
Indices: 10036982--10037023 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
10036972 TAGAGACGAC
10036982 TTAATCGACTAAGAAGCATTA
1 TTAATCGACTAAG-AGC-TTA
10037003 TTAATCGACTAAGAGCTTA
1 TTAATCGACTAAGAGCTTA
10037022 TT
1 TT
10037024 GCCAGAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 3 0.14
21 13 0.62
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (19 bp):
TTAATCGACTAAGAGCTTA
Found at i:10037059 original size:73 final size:73
Alignment explanation
Indices: 10036964--10037164 Score: 251
Period size: 73 Copynumber: 2.8 Consensus size: 73
10036954 AGATGGCCGA
* * * * * *
10036964 TTCAAAAATAGAGACGACTTAATCGACTAAGAAGCATTATTAATCGACTAAGAGCTTATTGCCAG
1 TTCAAAGACAGAGACAACTTAATCGACTAAGAAGCATTATTAGTCGACTAAGAGCTCACTGCCAG
*
10037029 AAGTTGAG
66 AAATTGAG
* * * *
10037037 TTCAGAGACAGAGACAACTTAATTGACTAAGAAGAATTATTAGTCGACTAAAAGCTCACTGCCAG
1 TTCAAAGACAGAGACAACTTAATCGACTAAGAAGCATTATTAGTCGACTAAGAGCTCACTGCCAG
*
10037102 AAATTGGG
66 AAATTGAG
* * *
10037110 TTTAAAGACAAAGACAACTTAATCGACTAAGAAGCA-TAGTTAGTTGACTAAGAGC
1 TTCAAAGACAGAGACAACTTAATCGACTAAGAAGCATTA-TTAGTCGACTAAGAGC
10037165 ATTCTATCTA
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
72 2 0.02
73 106 0.98
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.24
Consensus pattern (73 bp):
TTCAAAGACAGAGACAACTTAATCGACTAAGAAGCATTATTAGTCGACTAAGAGCTCACTGCCAG
AAATTGAG
Found at i:10045071 original size:3 final size:3
Alignment explanation
Indices: 10045063--10045109 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
10045053 CAAATATAGT
* *
10045063 TAC TAC TAC TAC TAC TGC TAC TAC TAC TAC TAC TAC TAC TAT TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
10045110 TTGCTACTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.36
Consensus pattern (3 bp):
TAC
Found at i:10046619 original size:2 final size:2
Alignment explanation
Indices: 10046607--10046686 Score: 142
Period size: 2 Copynumber: 40.0 Consensus size: 2
10046597 GGGTAGTGGG
*
10046607 CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
10046649 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10046687 TTTTCAACCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:10052600 original size:22 final size:23
Alignment explanation
Indices: 10052566--10052612 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
10052556 ATTTCCATGC
10052566 ATTACTATAAAAACTAAGC-CAA
1 ATTACTATAAAAACTAAGCTCAA
* * *
10052588 ATTATTATCAAAATTAAGCTCAA
1 ATTACTATAAAAACTAAGCTCAA
10052611 AT
1 AT
10052613 AACTCTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (23 bp):
ATTACTATAAAAACTAAGCTCAA
Found at i:10054745 original size:73 final size:73
Alignment explanation
Indices: 10054668--10054859 Score: 249
Period size: 73 Copynumber: 2.6 Consensus size: 73
10054658 GTTCAGAAAA
* * * * * * *
10054668 AGAAACGACTTAATCGACTAAGAAGCATTGTTAGTTGACTAAGAGTTTACTGCTAGAACCTGAAT
1 AGAAACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTCACTGCCAAAAACTGAAT
10054733 TCAAAGAC
66 TCAAAGAC
* * **
10054741 AGAAACGACTTAATCAACTAAGAAGTATTGTTAGTCGACTAAGAGCTCATTGCCAAAAACTGGGT
1 AGAAACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTCACTGCCAAAAACTGAAT
*
10054806 TCAGAGAC
66 TCAAAGAC
* * *
10054814 AGAGACAACTTAATCGACTAAGAAGTATAGTTAGTCGACTAAGAGC
1 AGAAACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGC
10054860 ATTCTGTCTG
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 103 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (73 bp):
AGAAACGACTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTCACTGCCAAAAACTGAAT
TCAAAGAC
Found at i:10065797 original size:20 final size:20
Alignment explanation
Indices: 10065772--10065817 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
10065762 CTTTTAAACC
10065772 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
10065792 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
10065812 TCAAAT
1 TCAAAT
10065818 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:10066812 original size:12 final size:13
Alignment explanation
Indices: 10066785--10066810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10066775 GGAAGAGGAC
10066785 TCTCTTTTTTCTT
1 TCTCTTTTTTCTT
10066798 TCTCTTTTTTCTT
1 TCTCTTTTTTCTT
10066811 CTAATCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TCTCTTTTTTCTT
Found at i:10071819 original size:22 final size:21
Alignment explanation
Indices: 10071790--10071830 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
10071780 TTACAAATTT
10071790 ATTATTTTA-TTATATATTTGA
1 ATTATTTTATTTAT-TATTTGA
10071811 ATTATTTTTATTTATTATTT
1 ATTA-TTTTATTTATTATTT
10071831 TTATCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTATTTTATTTATTATTTGA
Found at i:10071850 original size:21 final size:21
Alignment explanation
Indices: 10071816--10071855 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10071806 TTTGAATTAT
*
10071816 TTTTATTTATTATTTTTATCC
1 TTTTATTTATTATTGTTATCC
10071837 TTTT-TTTATCTATTGTTAT
1 TTTTATTTAT-TATTGTTAT
10071856 TTATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTATTTATTATTGTTATCC
Found at i:10071864 original size:14 final size:13
Alignment explanation
Indices: 10071811--10071873 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
10071801 ATATATTTGA
10071811 ATTATTTTTATTT
1 ATTATTTTTATTT
*
10071824 ATTATTTTTA-TC
1 ATTATTTTTATTT
* *
10071836 CTT-TTTTTATCT
1 ATTATTTTTATTT
*
10071848 ATTGTTATTTATTT
1 ATTATT-TTTATTT
10071862 ATTATTTTTATT
1 ATTATTTTTATT
10071874 GAATAACTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 6 0.15
12 5 0.12
13 18 0.45
14 11 0.28
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.73
Consensus pattern (13 bp):
ATTATTTTTATTT
Found at i:10072801 original size:17 final size:18
Alignment explanation
Indices: 10072779--10072846 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 18
10072769 CCGACCACTA
10072779 CCCAA-CGATCGGCTCTC
1 CCCAACCGATCGGCTCTC
*
10072796 CCCAACCGGT-GGCTGCTAC
1 CCCAACCGATCGGCT-CT-C
*
10072815 TCCCAACAG-TCGGCTCTC
1 -CCCAACCGATCGGCTCTC
*
10072833 CCCAATCGA-CGGCT
1 CCCAACCGATCGGCT
10072847 GTTGCTCCCC
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
17 20 0.49
18 6 0.15
19 4 0.10
20 11 0.27
ACGTcount: A:0.18, C:0.44, G:0.21, T:0.18
Consensus pattern (18 bp):
CCCAACCGATCGGCTCTC
Found at i:10072820 original size:37 final size:37
Alignment explanation
Indices: 10072779--10073053 Score: 151
Period size: 38 Copynumber: 7.5 Consensus size: 37
10072769 CCGACCACTA
** *
10072779 CCCAACGATCGGCTCTCCCCAACCGGTGGCTGCTACT
1 CCCAACGATCGGCTCTCCCCAACCGACGGCTGCTGCT
* *
10072816 CCCAAC-AGTCGGCTCTCCCCAATCGACGGCTGTTGCT
1 CCCAACGA-TCGGCTCTCCCCAACCGACGGCTGCTGCT
* * * *
10072853 CCCCAACAATCAGCTCTCCCTAACCGACGGTTGCTGCT
1 -CCCAACGATCGGCTCTCCCCAACCGACGGCTGCTGCT
*
10072891 CCTTAACGATCGGCTCT--CCAACCGACGGC-G-T-CGT
1 CC-CAACGATCGGCTCTCCCCAACCGACGGCTGCTGC-T
* * * * * *
10072925 -TCAA--ATCGGCTTTCCTCAACCAATGGCATCGCT-CC
1 CCCAACGATCGGCTCTCCCCAACCGACGGC-T-GCTGCT
* * * **
10072960 CCCAACGATCAGCTCTCTCCAATCGGA-GGCTAATGCT
1 CCCAACGATCGGCTCTCCCCAA-CCGACGGCTGCTGCT
* ** *
10072997 CCCTAACGGTCGGCTCTCCCCAACCGACGATTGCTGTT
1 CCC-AACGATCGGCTCTCCCCAACCGACGGCTGCTGCT
10073035 CCCCAAC-AGTCGGCTCTCC
1 -CCCAACGA-TCGGCTCTCC
10073054 AATCGGCGAC
Statistics
Matches: 176, Mismatches: 42, Indels: 39
0.68 0.16 0.15
Matches are distributed among these distances:
30 8 0.05
32 11 0.06
33 1 0.01
34 2 0.01
35 2 0.01
36 17 0.10
37 40 0.23
38 89 0.51
39 6 0.03
ACGTcount: A:0.19, C:0.40, G:0.19, T:0.21
Consensus pattern (37 bp):
CCCAACGATCGGCTCTCCCCAACCGACGGCTGCTGCT
Found at i:10073512 original size:16 final size:17
Alignment explanation
Indices: 10073493--10073524 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10073483 CCCTTTTCTT
10073493 TTTTTTTGTTT-TTTTC
1 TTTTTTTGTTTATTTTC
10073509 TTTTTTTGTTTATTTT
1 TTTTTTTGTTTATTTT
10073525 TCATTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.88
Consensus pattern (17 bp):
TTTTTTTGTTTATTTTC
Found at i:10073524 original size:18 final size:18
Alignment explanation
Indices: 10073486--10073526 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10073476 CCCTCTCCCC
*
10073486 TTTTCTTTTTTTTTGTTT
1 TTTTCTTTTTTTTTGTAT
10073504 TTTTCTTTTTTTGTT-TAT
1 TTTTCTTTTTTT-TTGTAT
10073522 TTTTC
1 TTTTC
10073527 ATTTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.85
Consensus pattern (18 bp):
TTTTCTTTTTTTTTGTAT
Found at i:10088564 original size:2 final size:2
Alignment explanation
Indices: 10088559--10088602 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10088549 TTAGTTGCTC
10088559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10088601 TA
1 TA
10088603 AGAGGTTACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10102022 original size:18 final size:18
Alignment explanation
Indices: 10102001--10102036 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10101991 GCAACACTAA
*
10102001 GCTTATCTGCTGTGGCTG
1 GCTTATCTACTGTGGCTG
10102019 GCTTATCTACTGTGGCTG
1 GCTTATCTACTGTGGCTG
10102037 TAACAGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.22, G:0.31, T:0.39
Consensus pattern (18 bp):
GCTTATCTACTGTGGCTG
Found at i:10102083 original size:18 final size:18
Alignment explanation
Indices: 10102058--10102111 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
10102048 AGCTTATCTA
10102058 GCTTATCTGCTGTGGCTG
1 GCTTATCTGCTGTGGCTG
* *
10102076 GTTTATCTGCTATGGCTG
1 GCTTATCTGCTGTGGCTG
10102094 GCTTATCTGCTGTGGCTG
1 GCTTATCTGCTGTGGCTG
10102112 TAGCAGAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.07, C:0.20, G:0.31, T:0.41
Consensus pattern (18 bp):
GCTTATCTGCTGTGGCTG
Found at i:10107086 original size:12 final size:13
Alignment explanation
Indices: 10107028--10107093 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 13
10107018 AAGATTATTC
10107028 AATAAAAATAATA
1 AATAAAAATAATA
*
10107041 AATAAATAACAATA
1 AATAAA-AATAATA
* *
10107055 GATAAAAAAAATGA
1 AATAAAAATAAT-A
*
10107069 TGATAAAAATAAT-
1 -AATAAAAATAATA
*
10107082 AATAATAATAAT
1 AATAAAAATAAT
10107094 TCAAATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 10 0.23
13 11 0.25
14 12 0.27
15 11 0.25
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.24
Consensus pattern (13 bp):
AATAAAAATAATA
Found at i:10107359 original size:17 final size:18
Alignment explanation
Indices: 10107339--10107377 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
10107329 TTGCTTATGA
*
10107339 AAAAATATAATAATA-AT
1 AAAAATATAAAAATATAT
10107356 AAAAATATAAAAATATAT
1 AAAAATATAAAAATATAT
10107374 AAAA
1 AAAA
10107378 TAAAAATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATATAAAAATATAT
Found at i:10107378 original size:17 final size:17
Alignment explanation
Indices: 10107340--10107405 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 17
10107330 TGCTTATGAA
*
10107340 AAAATATAATAATA-AT
1 AAAATATAAAAATATAT
10107356 AAAAATATAAAAATATAT
1 -AAAATATAAAAATATAT
10107374 -AAA-ATAAAAATAGTAT
1 AAAATATAAAAATA-TAT
10107390 --AATA-AAAAATATAT
1 AAAATATAAAAATATAT
10107404 AA
1 AA
10107406 TTTTTGTTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
14 3 0.07
15 18 0.42
16 7 0.16
17 13 0.30
18 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATATAAAAATATAT
Done.